安装

其他安装命令

macOS

Homebrew已验证 · 100%

brew install fastqc

local Homebrew formula metadata

Linux

Debian apt已验证 · 92%

sudo apt install fastqc

Debian stable package indexes · fastqc · 来源: deb.debian.org

Nix已验证 · 92%

nix profile install nixpkgs#fastqc

nixpkgs package indexes · pkgs/by-name/fa/fastqc/package.nix · 来源: api.github.com

概览

软件包摘要

Quality control tool for high throughput sequence data

项目链接

命令和别名

fastqc

历史

项目历史与用法

FastQC is Babraham Bioinformatics' quality-control application for high-throughput sequencing data. It analyzes FASTQ, BAM, and SAM inputs and produces graphical and HTML reports that flag unusual properties before downstream analysis.

项目历史

FastQC was created by Simon Andrews at Babraham Bioinformatics and had public releases by April 2010, according to the official project changelog. The project page describes it as stable, mature Java software released under GPL v3 or later.

The GitHub repository was created in 2017 as the public source-code home for developers and bug tracing, while the Babraham project page remains the canonical place for users to download compiled packages and read documentation.

采用历史

FastQC became a standard first-pass QC tool for high-throughput sequencing because it works both as an interactive GUI and as a non-interactive pipeline step. The project page emphasizes permanent HTML report export and example reports for Illumina, RNA-Seq adapter contamination, small RNA, RRBS, PacBio, and 454 datasets.

Its release history shows long maintenance from 2010 through the 0.12.x releases in 2023, adapting to new sequencing formats and operational needs such as NovaSeq tile handling, Nanopore format changes, SVG output, and memory options.

使用方式

Users run FastQC before deeper analysis to get a quick overview of raw sequence quality. Its modules summarize base quality, sequence content, duplication, adapter content, and other signals, then mark modules as pass, warning, or fail.

FastQC can process multiple files in the graphical application, or run headlessly in pipelines to generate one report per input file. It documents no persistent package configuration file or credential store.

为什么软件包爱好者会关心

FastQC is a canonical bioinformatics package-manager resident: a Java GUI that is also a CLI pipeline tool, a project website that predates the GitHub source repo, and output reports recognizable across sequencing workflows.

时间线

2010: Version 0.1 is released.
2017: The public GitHub source repository is created.
2018: v0.11.8 is released with performance and behavior fixes.
2023: v0.12.x releases add modern report and runtime improvements.

Related projects

FastQC is commonly paired with FASTQ preprocessing tools such as fastp; fastp's own README describes its HTML report as FastQC-like.

来源

安全态势

风险级别：绿色

narrow executable package without higher-risk signals.

风险分类器

绿色风险 · 低置信度 · appliance

原因

narrow executable package without higher-risk signals

信号

metadata:no-higher-risk-signals

安装行为

formula 元数据中未记录 Homebrew post-install 钩子。
Homebrew bottle 元数据适用于 1 个平台目标。
安装时包含 1 个运行时依赖。

建议审查

在无人值守的代理使用前，请检查该工具是否读取明文凭据、写入远程状态、发布制品或调用插件。

可执行文件

已安装的可执行文件

命令	类型	暴露范围	备注
`fastqc`	cli	全局可执行文件

新鲜度

版本和新鲜度

这些信号区分页生成时间、软件包管理器活动和上游发布比较。只有存在证据 URL 和可比较版本时，才会提示版本落后。

页面生成时间2026-07-08

管理器版本0.12.1

管理器更新时间2026-06-22

本地数据OK

上游not checked

信息Release/tag comparison is only available for GitHub repositories.https://www.bioinformatics.babraham.ac.uk/projects/fastqc/none 置信度

安装元数据

软件包元数据

软件包键	brew:fastqc
版本	0.12.1
软件包管理器	Homebrew
软件包管理器页面	https://formulae.brew.sh/formula/fastqc
主页	https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
仓库	https://github.com/s-andrews/FastQC
上游文档	https://www.bioinformatics.babraham.ac.uk/projects/fastqc
许可证	GPL-3.0-or-later
源码归档	https://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.12.1.zip
最后更新	2026-06-22T14:03:18-07:00
Pulse	updated
依赖	openjdk
Bottle	可用 (于 all)
Homebrew post-install	未定义
服务	未声明

注册表事实

源数据库详情

Source Database	Homebrew formula API
Tap	homebrew/core
Full Name	fastqc
Version Scheme	0
Revision	0
Bottle Stable Root URL	https://ghcr.io/v2/homebrew/core
Deprecated	no
Disabled	no
Keg Only	no
URL Keys	stable

源数据库匹配

其他软件包管理器记录

匹配项来自外部软件包管理器索引，并与本地 Automic Vault 软件包链接分开显示。

Debian apt95%

fastqc 0.12.1+dfsg-4

quality control for high throughput sequence data

https://www.bioinformatics.babraham.ac.uk/projects/fastqc/

sudo apt install fastqc

Section: science
Architecture: all
5 依赖
normalized package name match
匹配方式：Fastqc

Debian stable package indexes · deb.debian.org · Debian stable package indexes: fastqc from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz

Nix95%

fastqc

nix profile install nixpkgs#fastqc

normalized package name match
匹配方式：Fastqc

nixpkgs package indexes · api.github.com · nixpkgs package indexes: pkgs/by-name/fa/fastqc/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1

Ubuntu apt95%

fastqc 0.12.1+dfsg-3

quality control for high throughput sequence data

https://www.bioinformatics.babraham.ac.uk/projects/fastqc/

sudo apt install fastqc

Section: universe/science
Architecture: all
6 依赖
normalized package name match
匹配方式：Fastqc

Ubuntu 24.04 LTS package indexes · archive.ubuntu.com · Ubuntu 24.04 LTS package indexes: fastqc from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz

软件包图谱

链接来自本地软件包关系图、补充数据、依赖边、生态匹配和软件包 hub 归属。

来源线索

由仓库数据生成

此页面由 av-web 从 scripts/generate-pkg-sqlite.py 生成的私有软件包 SQLite 工件提供。

Combined YAML source

View the package source record on GitHub.

combined/fastqc.yml

使用的来源

Geiger risk classifier
Nucleus package database
av.db category and tag curation
cross-ecosystem install command graph
curated package history
external package-manager database matches
package relationship graph
package version freshness
package-page enrichment

使用 Homebrew, apt, Nix 安装 fastqc